Skip to content
This repository was archived by the owner on Feb 7, 2023. It is now read-only.

Commit a43619f

Browse files
mvdbeekmvdbeek
committed
Add script to convert selection analysis summary to bed
1 parent 0d8d593 commit a43619f

File tree

4 files changed

+639
-0
lines changed

4 files changed

+639
-0
lines changed

‎genomics/4-Variation/selection_analysis_ncbi.bed‎

Lines changed: 307 additions & 0 deletions
Original file line numberDiff line numberDiff line change
@@ -0,0 +1,307 @@
1+
NC_045512.2 21583 21585 Positive_selection 1
2+
NC_045512.2 21646 21648 Positive_selection 1
3+
NC_045512.2 21709 21711 Positive_selection 2
4+
NC_045512.2 21709 21711 Intra-host_variants 2
5+
NC_045512.2 21787 21789 Positive_selection 1
6+
NC_045512.2 21829 21831 Positive_selection 1
7+
NC_045512.2 21844 21846 Positive_selection 1
8+
NC_045512.2 21988 21990 Positive_selection 2
9+
NC_045512.2 21988 21990 Unexpected_residues 2
10+
NC_045512.2 21994 21996 Positive_selection 2
11+
NC_045512.2 21994 21996 Intra-host_variants 2
12+
NC_045512.2 22660 22662 Positive_selection 3
13+
NC_045512.2 22660 22662 Multiple_Clades 3
14+
NC_045512.2 22660 22662 Intra-host_variants 3
15+
NC_045512.2 22876 22878 Positive_selection 1
16+
NC_045512.2 23401 23403 Common_Variant 2
17+
NC_045512.2 23401 23403 Increasing_frequency 2
18+
NC_045512.2 23404 23406 Positive_selection 2
19+
NC_045512.2 23404 23406 Unexpected_residues 2
20+
NC_045512.2 23677 23679 Positive_selection 1
21+
NC_045512.2 24052 24054 Positive_selection 2
22+
NC_045512.2 24052 24054 Increasing_frequency 2
23+
NC_045512.2 24094 24096 Positive_selection 2
24+
NC_045512.2 24094 24096 Intra-host_variants 2
25+
NC_045512.2 24388 24390 Positive_selection 2
26+
NC_045512.2 24388 24390 Multiple_Clades 2
27+
NC_045512.2 24679 24681 Positive_selection 2
28+
NC_045512.2 24679 24681 Unexpected_residues 2
29+
NC_045512.2 24931 24933 Positive_selection 3
30+
NC_045512.2 24931 24933 Multiple_Clades 3
31+
NC_045512.2 24931 24933 Unexpected_residues 3
32+
NC_045512.2 28309 28311 Positive_selection 4
33+
NC_045512.2 28309 28311 Multiple_Clades 4
34+
NC_045512.2 28309 28311 Increasing_frequency 4
35+
NC_045512.2 28309 28311 Intra-host_variants 4
36+
NC_045512.2 28330 28332 Positive_selection 1
37+
NC_045512.2 28336 28338 Positive_selection 2
38+
NC_045512.2 28336 28338 Increasing_frequency 2
39+
NC_045512.2 28372 28374 Positive_selection 3
40+
NC_045512.2 28372 28374 Multiple_Clades 3
41+
NC_045512.2 28372 28374 Unexpected_residues 3
42+
NC_045512.2 28594 28596 Negative_selection 1
43+
NC_045512.2 28627 28629 Positive_selection 2
44+
NC_045512.2 28627 28629 Intra-host_variants 2
45+
NC_045512.2 28702 28704 Positive_selection 1
46+
NC_045512.2 28723 28725 Positive_selection 3
47+
NC_045512.2 28723 28725 Unexpected_residues 3
48+
NC_045512.2 28723 28725 Intra-host_variants 3
49+
NC_045512.2 28810 28812 Positive_selection 1
50+
NC_045512.2 28825 28827 Positive_selection 2
51+
NC_045512.2 28825 28827 Unexpected_residues 2
52+
NC_045512.2 28840 28842 Positive_selection 1
53+
NC_045512.2 28849 28851 Positive_selection 3
54+
NC_045512.2 28849 28851 Increasing_frequency 3
55+
NC_045512.2 28849 28851 Intra-host_variants 3
56+
NC_045512.2 28861 28863 Positive_selection 4
57+
NC_045512.2 28861 28863 Multiple_Clades 4
58+
NC_045512.2 28861 28863 Increasing_frequency 4
59+
NC_045512.2 28861 28863 Intra-host_variants 4
60+
NC_045512.2 28876 28878 Positive_selection 3
61+
NC_045512.2 28876 28878 Unexpected_residues 3
62+
NC_045512.2 28876 28878 Intra-host_variants 3
63+
NC_045512.2 28885 28887 Positive_selection 2
64+
NC_045512.2 28885 28887 Increasing_frequency 2
65+
NC_045512.2 28894 28896 Positive_selection 2
66+
NC_045512.2 28894 28896 Increasing_frequency 2
67+
NC_045512.2 28924 28926 Positive_selection 1
68+
NC_045512.2 29302 29304 Positive_selection 2
69+
NC_045512.2 29302 29304 Multiple_Clades 2
70+
NC_045512.2 29413 29415 Positive_selection 1
71+
NC_045512.2 29449 29451 Positive_selection 2
72+
NC_045512.2 29449 29451 Intra-host_variants 2
73+
NC_045512.2 29476 29478 Positive_selection 1
74+
NC_045512.2 26780 26782 Positive_selection 1
75+
NC_045512.2 27044 27046 Positive_selection 2
76+
NC_045512.2 27044 27046 Increasing_frequency 2
77+
NC_045512.2 27146 27148 Positive_selection 1
78+
NC_045512.2 25428 25430 Positive_selection 2
79+
NC_045512.2 25428 25430 Increasing_frequency 2
80+
NC_045512.2 25431 25433 Positive_selection 3
81+
NC_045512.2 25431 25433 Increasing_frequency 3
82+
NC_045512.2 25431 25433 Unexpected_residues 3
83+
NC_045512.2 25434 25436 Positive_selection 1
84+
NC_045512.2 25467 25469 Positive_selection 1
85+
NC_045512.2 25503 25505 Positive_selection 2
86+
NC_045512.2 25503 25505 Unexpected_residues 2
87+
NC_045512.2 25527 25529 Positive_selection 2
88+
NC_045512.2 25527 25529 Increasing_frequency 2
89+
NC_045512.2 25551 25553 Positive_selection 2
90+
NC_045512.2 25551 25553 Increasing_frequency 2
91+
NC_045512.2 25560 25562 Common_Variant 3
92+
NC_045512.2 25560 25562 Increasing_frequency 3
93+
NC_045512.2 25560 25562 Intra-host_variants 3
94+
NC_045512.2 25605 25607 Positive_selection 1
95+
NC_045512.2 25617 25619 Positive_selection 1
96+
NC_045512.2 25647 25649 Positive_selection 1
97+
NC_045512.2 25686 25688 Positive_selection 5
98+
NC_045512.2 25686 25688 Multiple_Clades 5
99+
NC_045512.2 25686 25688 Increasing_frequency 5
100+
NC_045512.2 25686 25688 Unexpected_residues 5
101+
NC_045512.2 25686 25688 Intra-host_variants 5
102+
NC_045512.2 25710 25712 Positive_selection 3
103+
NC_045512.2 25710 25712 Unexpected_residues 3
104+
NC_045512.2 25710 25712 Intra-host_variants 3
105+
NC_045512.2 25719 25721 Positive_selection 2
106+
NC_045512.2 25719 25721 Unexpected_residues 2
107+
NC_045512.2 25764 25766 Negative_selection 1
108+
NC_045512.2 25782 25784 Negative_selection 1
109+
NC_045512.2 25809 25811 Positive_selection 2
110+
NC_045512.2 25809 25811 Unexpected_residues 2
111+
NC_045512.2 25821 25823 Positive_selection 2
112+
NC_045512.2 25821 25823 Unexpected_residues 2
113+
NC_045512.2 25830 25832 Positive_selection 2
114+
NC_045512.2 25830 25832 Unexpected_residues 2
115+
NC_045512.2 25884 25886 Positive_selection 1
116+
NC_045512.2 25941 25943 Positive_selection 1
117+
NC_045512.2 25944 25946 Positive_selection 2
118+
NC_045512.2 25944 25946 Unexpected_residues 2
119+
NC_045512.2 26028 26030 Positive_selection 1
120+
NC_045512.2 26043 26045 Positive_selection 1
121+
NC_045512.2 26106 26108 Positive_selection 1
122+
NC_045512.2 26142 26144 Positive_selection 3
123+
NC_045512.2 26142 26144 Multiple_Clades 3
124+
NC_045512.2 26142 26144 Unexpected_residues 3
125+
NC_045512.2 26151 26153 Positive_selection 1
126+
NC_045512.2 26196 26198 Positive_selection 1
127+
NC_045512.2 26202 26204 Positive_selection 1
128+
NC_045512.2 26214 26216 Positive_selection 1
129+
NC_045512.2 27234 27236 Negative_selection 1
130+
NC_045512.2 28085 28087 Positive_selection 3
131+
NC_045512.2 28085 28087 Multiple_Clades 3
132+
NC_045512.2 28085 28087 Intra-host_variants 3
133+
NC_045512.2 28142 28144 Positive_selection 3
134+
NC_045512.2 28142 28144 Multiple_Clades 3
135+
NC_045512.2 28142 28144 Intra-host_variants 3
136+
NC_045512.2 28247 28249 Positive_selection 3
137+
NC_045512.2 28247 28249 Multiple_Clades 3
138+
NC_045512.2 28247 28249 Intra-host_variants 3
139+
NC_045512.2 28253 28255 Positive_selection 3
140+
NC_045512.2 28253 28255 Multiple_Clades 3
141+
NC_045512.2 28253 28255 Unexpected_residues 3
142+
NC_045512.2 352 354 Positive_selection 2
143+
NC_045512.2 352 354 Unexpected_residues 2
144+
NC_045512.2 511 513 Negative_selection 1
145+
NC_045512.2 667 669 Negative_selection 1
146+
NC_045512.2 760 762 Positive_selection 1
147+
NC_045512.2 955 957 Positive_selection 2
148+
NC_045512.2 955 957 Unexpected_residues 2
149+
NC_045512.2 1057 1059 Positive_selection 4
150+
NC_045512.2 1057 1059 Multiple_Clades 4
151+
NC_045512.2 1057 1059 Increasing_frequency 4
152+
NC_045512.2 1057 1059 Intra-host_variants 4
153+
NC_045512.2 1066 1068 Positive_selection 1
154+
NC_045512.2 1120 1122 Negative_selection 1
155+
NC_045512.2 1384 1386 Positive_selection 2
156+
NC_045512.2 1384 1386 Unexpected_residues 2
157+
NC_045512.2 1438 1440 Positive_selection 2
158+
NC_045512.2 1438 1440 Increasing_frequency 2
159+
NC_045512.2 1546 1548 Positive_selection 1
160+
NC_045512.2 1567 1569 Negative_selection 1
161+
NC_045512.2 1603 1605 Negative_selection 1
162+
NC_045512.2 1819 1821 Positive_selection 2
163+
NC_045512.2 1819 1821 Multiple_Clades 2
164+
NC_045512.2 2002 2004 Positive_selection 3
165+
NC_045512.2 2002 2004 Unexpected_residues 3
166+
NC_045512.2 2002 2004 Intra-host_variants 3
167+
NC_045512.2 2242 2244 Positive_selection 3
168+
NC_045512.2 2242 2244 Unexpected_residues 3
169+
NC_045512.2 2242 2244 Intra-host_variants 3
170+
NC_045512.2 3034 3036 Negative_selection 3
171+
NC_045512.2 3034 3036 Common_Variant 3
172+
NC_045512.2 3034 3036 Intra-host_variants 3
173+
NC_045512.2 3142 3144 Positive_selection 1
174+
NC_045512.2 3370 3372 Positive_selection 3
175+
NC_045512.2 3370 3372 Increasing_frequency 3
176+
NC_045512.2 3370 3372 Intra-host_variants 3
177+
NC_045512.2 3562 3564 Positive_selection 4
178+
NC_045512.2 3562 3564 Multiple_Clades 4
179+
NC_045512.2 3562 3564 Increasing_frequency 4
180+
NC_045512.2 3562 3564 Unexpected_residues 4
181+
NC_045512.2 4009 4011 Positive_selection 2
182+
NC_045512.2 4009 4011 Unexpected_residues 2
183+
NC_045512.2 4252 4254 Negative_selection 1
184+
NC_045512.2 4387 4389 Positive_selection 1
185+
NC_045512.2 5059 5061 Positive_selection 1
186+
NC_045512.2 5605 5607 Negative_selection 1
187+
NC_045512.2 6253 6255 Positive_selection 2
188+
NC_045512.2 6253 6255 Multiple_Clades 2
189+
NC_045512.2 6310 6312 Positive_selection 3
190+
NC_045512.2 6310 6312 Multiple_Clades 3
191+
NC_045512.2 6310 6312 Increasing_frequency 3
192+
NC_045512.2 6634 6636 Positive_selection 3
193+
NC_045512.2 6634 6636 Multiple_Clades 3
194+
NC_045512.2 6634 6636 Intra-host_variants 3
195+
NC_045512.2 6694 6696 Positive_selection 2
196+
NC_045512.2 6694 6696 Multiple_Clades 2
197+
NC_045512.2 6721 6723 Positive_selection 3
198+
NC_045512.2 6721 6723 Multiple_Clades 3
199+
NC_045512.2 6721 6723 Increasing_frequency 3
200+
NC_045512.2 6988 6990 Positive_selection 3
201+
NC_045512.2 6988 6990 Multiple_Clades 3
202+
NC_045512.2 6988 6990 Increasing_frequency 3
203+
NC_045512.2 7009 7011 Positive_selection 3
204+
NC_045512.2 7009 7011 Multiple_Clades 3
205+
NC_045512.2 7009 7011 Increasing_frequency 3
206+
NC_045512.2 7987 7989 Negative_selection 1
207+
NC_045512.2 8779 8781 Negative_selection 2
208+
NC_045512.2 8779 8781 Intra-host_variants 2
209+
NC_045512.2 8788 8790 Positive_selection 2
210+
NC_045512.2 8788 8790 Multiple_Clades 2
211+
NC_045512.2 9109 9111 Positive_selection 1
212+
NC_045512.2 9436 9438 Positive_selection 3
213+
NC_045512.2 9436 9438 Multiple_Clades 3
214+
NC_045512.2 9436 9438 Intra-host_variants 3
215+
NC_045512.2 10321 10323 Positive_selection 4
216+
NC_045512.2 10321 10323 Multiple_Clades 4
217+
NC_045512.2 10321 10323 Increasing_frequency 4
218+
NC_045512.2 10321 10323 Intra-host_variants 4
219+
NC_045512.2 10333 10335 Positive_selection 1
220+
NC_045512.2 10711 10713 Positive_selection 1
221+
NC_045512.2 11071 11073 Negative_selection 2
222+
NC_045512.2 11071 11073 Intra-host_variants 2
223+
NC_045512.2 11080 11082 Positive_selection 2
224+
NC_045512.2 11080 11082 Intra-host_variants 2
225+
NC_045512.2 11404 11406 Positive_selection 2
226+
NC_045512.2 11404 11406 Increasing_frequency 2
227+
NC_045512.2 11527 11529 Positive_selection 2
228+
NC_045512.2 11527 11529 Unexpected_residues 2
229+
NC_045512.2 11533 11535 Positive_selection 2
230+
NC_045512.2 11533 11535 Multiple_Clades 2
231+
NC_045512.2 12331 12333 Negative_selection 1
232+
NC_045512.2 13512 13514 Positive_selection 3
233+
NC_045512.2 13512 13514 Multiple_Clades 3
234+
NC_045512.2 13512 13514 Unexpected_residues 3
235+
NC_045512.2 13626 13628 Positive_selection 3
236+
NC_045512.2 13626 13628 Increasing_frequency 3
237+
NC_045512.2 13626 13628 Intra-host_variants 3
238+
NC_045512.2 13728 13730 Positive_selection 5
239+
NC_045512.2 13728 13730 Multiple_Clades 5
240+
NC_045512.2 13728 13730 Increasing_frequency 5
241+
NC_045512.2 13728 13730 Unexpected_residues 5
242+
NC_045512.2 13728 13730 Intra-host_variants 5
243+
NC_045512.2 13944 13946 Negative_selection 1
244+
NC_045512.2 14193 14195 Positive_selection 2
245+
NC_045512.2 14193 14195 Intra-host_variants 2
246+
NC_045512.2 14406 14408 Positive_selection 6
247+
NC_045512.2 14406 14408 Multiple_Clades 6
248+
NC_045512.2 14406 14408 Common_Variant 6
249+
NC_045512.2 14406 14408 Increasing_frequency 6
250+
NC_045512.2 14406 14408 Unexpected_residues 6
251+
NC_045512.2 14406 14408 Intra-host_variants 6
252+
NC_045512.2 15276 15278 Positive_selection 3
253+
NC_045512.2 15276 15278 Increasing_frequency 3
254+
NC_045512.2 15276 15278 Intra-host_variants 3
255+
NC_045512.2 15705 15707 Negative_selection 1
256+
NC_045512.2 16533 16535 Positive_selection 1
257+
NC_045512.2 17124 17126 Positive_selection 2
258+
NC_045512.2 17124 17126 Increasing_frequency 2
259+
NC_045512.2 17244 17246 Negative_selection 1
260+
NC_045512.2 17277 17279 Positive_selection 2
261+
NC_045512.2 17277 17279 Unexpected_residues 2
262+
NC_045512.2 17409 17411 Positive_selection 2
263+
NC_045512.2 17409 17411 Multiple_Clades 2
264+
NC_045512.2 17472 17474 Positive_selection 1
265+
NC_045512.2 17796 17798 Negative_selection 1
266+
NC_045512.2 17823 17825 Positive_selection 3
267+
NC_045512.2 17823 17825 Unexpected_residues 3
268+
NC_045512.2 17823 17825 Intra-host_variants 3
269+
NC_045512.2 17883 17885 Positive_selection 1
270+
NC_045512.2 18651 18653 Positive_selection 2
271+
NC_045512.2 18651 18653 Intra-host_variants 2
272+
NC_045512.2 18654 18656 Positive_selection 1
273+
NC_045512.2 18684 18686 Positive_selection 2
274+
NC_045512.2 18684 18686 Intra-host_variants 2
275+
NC_045512.2 19482 19484 Positive_selection 2
276+
NC_045512.2 19482 19484 Multiple_Clades 2
277+
NC_045512.2 21135 21137 Positive_selection 4
278+
NC_045512.2 21135 21137 Multiple_Clades 4
279+
NC_045512.2 21135 21137 Unexpected_residues 4
280+
NC_045512.2 21135 21137 Intra-host_variants 4
281+
NC_045512.2 21240 21242 Positive_selection 1
282+
NC_045512.2 21303 21305 Positive_selection 1
283+
NC_045512.2 28861 28863 New 4
284+
NC_045512.2 24931 24933 New 3
285+
NC_045512.2 25710 25712 New 3
286+
NC_045512.2 6721 6723 New 3
287+
NC_045512.2 9436 9438 New 3
288+
NC_045512.2 17823 17825 New 3
289+
NC_045512.2 21709 21711 New 2
290+
NC_045512.2 24094 24096 New 2
291+
NC_045512.2 29302 29304 New 2
292+
NC_045512.2 25503 25505 New 2
293+
NC_045512.2 25944 25946 New 2
294+
NC_045512.2 6253 6255 New 2
295+
NC_045512.2 14193 14195 New 2
296+
NC_045512.2 17409 17411 New 2
297+
NC_045512.2 19482 19484 New 2
298+
NC_045512.2 29413 29415 New 1
299+
NC_045512.2 26780 26782 New 1
300+
NC_045512.2 25467 25469 New 1
301+
NC_045512.2 25605 25607 New 1
302+
NC_045512.2 26028 26030 New 1
303+
NC_045512.2 26043 26045 New 1
304+
NC_045512.2 26106 26108 New 1
305+
NC_045512.2 26196 26198 New 1
306+
NC_045512.2 10333 10335 New 1
307+
NC_045512.2 21303 21305 New 1

0 commit comments

Comments
 (0)